ISA tools API

The ISA tools API is published on PyPI as the isatools Python package. The package aims to provide you, the developer, with a set of tools to help you easily and quickly build your own ISA objects, validate, and convert between serializations of ISA-formatted datasets and other formats/schemas (e.g. SRA schemas). The goal of this package is to provide a flexible way to build and use ISA content, as well as provide utility functions for file conversions and validation.


isatools is currently only supported in Python 3.4 and 3.5. Python 2.7 support is present in the py2 source code branch in Github.

  1. Installation
  2. ISA model
  3. Creating objects
  4. Tutorial: describing a simple experiment with objects
  5. Creating ISA objects based on study-design
  6. Converting between ISA formats
  7. Importing and exporting SRA formatted datasets
  8. Downloading files stored in Github
  9. Validating ISA-Tab and ISA JSON
  10. Importing data in ISA formats
  11. Exporting data in ISA formats
  12. Creating ISA content with a Sample and Assay plan
  13. Known Issues